Module_1_What_is_a_Gene_Answer_Sheet
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Genomics Education Partnership Last Update: 08/20/2023 1 Module 1: Introduction to the Genome Browser: What is a gene?
Answer Sheet
Q1.
How many genes are there in contig1? -
There are three distinct features Q2. What are the names of these genes? -
CG32165-RC, spd-2-RA, tra Q3. Which gene has the largest span (i.e., the largest distance between the start and end of the gene)? -
CG32165-RC Q4. What is the relationship between the bases displayed when the arrow is pointed to the left versus when it is pointed to the right? -
When the arrow is pointed right it is the base track, and when the same arrow is pointed to the left the letters turn grey and change into the complementary nucleotide initial. Q5. Why do you think the bases are displayed in this way in the Genome Browser? -
The bases are typically displayed in the Genome Browser to indicate the directionality of the DNA sequence. When the arrow is pointed to the left, it typically represents the 5' to 3' direction on the negative strand, while pointing to the right represents the 5' to 3' direction on the positive strand. This convention helps users orient themselves within the genome and interpret the sequences displayed. Q6. How many exons does tra-RA contain? -
3 Q7. How many introns does tra-RA contain?
Genomics Education Partnership Last Update: 08/20/2023 2 -
2 Q8. Why do you think it takes three lines to display the amino acid information? Hint: remember that a codon is specified by three bases, e.g., CCG = Proline (circled in Figure 12). -
The Genome Browser uses single-letter abbreviations to represent each amino acid. These are shown on your Genome Browser as three new rows of information directly below the DNA sequence Q9. Based on the screenshot shown in Figure 22
, which reading frame contains the amino acid sequence for the second coding exon of tra-RA? -
Contig1:10,150-10,550
Q10. Does frame +2 have an ORF in the coding region of this exon? What about frame +1 and frame +3? -
All three frames have an ORF in this region. Q11. Given that 3 of the 64 possible codons are stop codons, what is the chance of having a stop codon at any given position, assuming that the sequence is random? -
Calculate the chance of having a stop codon at any given position are 500, assuming that the sequence is random, considering that 3 out of the 64 possible codons are stop codons. Q12. How many exons and introns are present in this gene? -
Count the number of exons and introns are present in the gene are 5 through 6 by examining the gene structure displayed in the Genome Browser. Q13. What is the orientation of this gene relative to contig1? How do you know? Where are the start codon and the stop codon — give the base position numbers (coordinates) of the start and the stop codon)? -
The orientation of the gene relative to contig1 and it was the start codon and stop codon, providing their base position numbers (coordinates). Bonus:
Take a little time to explore some of the other evidence tracks on the browser.
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Related Questions
TOPIC: PCR and Gene Cloning Basics
Question: What are 2 possible roles of CaCl2 in the transformation process?
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What is genetic engineering? What organisms can it be performed on? Please give an example of at least one successful genetic engineering project.
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Activity 6. What is your stand?
Directions. Below are some of the arguments about the use of transgenie organism.
In your own perspective, explain your answer in not more than 5 sentences.
1. Among the cited examples of GMO, which do you think is the most
beneficial?
2. If you are a farmer would you take the chance of growing crops that are
pest resistant? Why or why not?
3. Considering the knowledge gained
genetic engineering, would you try to
patronize GMO fruits and vegetables? Why or why not?
4. Is creating or altering genes of an organism a form of Blasphemy to the
creator (God)? Why?
5. Is genetic engineering morally permissible or not?
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2. How could multi-genes families complicate things in terms of using CRISPR to knock out a target gene and achieve a target phenotype?
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Direction: On the worksheet, all the DNA sequences run from 3' to 5'. Supply the corresponding
amino acid base on the DNA sequence provided per item. Determine the type of mutation and
explain its effect on the expression of amino acids.
1.
DNA Sequence: TAC TCC GGC TCT CCC AGT TGA ACT
inim
Mutated Sequence: TAC TCG GCT CTC CCA GTT GAA CT
Original Amino acid:
Mutated Amino Acid:
What mutation have occurred in the sequence? How does it affect the expression of amino
acids?
2.
DNA Sequence: TAC TCC GGC TCT CCC AGT TGA ACT
Mutated Sequence: TAC TCT GGC TCT CCA AGT TGA ACT
ww mm
Original Amino acid:
Mutated Amino Acid:
What mutation has occurred in the sequence? How does it affect the expression of amino
acids?
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Updates
Sickle-cell hemoglobin differs from regular hemoglobin in just one amino acid.
Normal hemoglobin is created from the codon GAA, which codes for glutamic
acid while sickle-cell hemoglobin has the codon GUA, which codes for valine.
This is an example of what type of mutation? *
Grades
Members
Conferences
BQ Online
Insertion
ewsela
Silent mutation
ation
O Deletion
ogy Periods 1 and 2
periods
ool MP1, Highschool
ghschool MP3,
pol MP4
Substitution mutation
During translation, the growing peptide chain resides in the P site of rRNA with
the next amino acid in the chain waiting in the A site. Erythromycin, a common
days
Wed Thu Fri
antibiotic, prevents the TRNA at the A site from moving into the P site. How does
INTL 1
A 9.0
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Primer Development
Pick your favorite gene and develop primers for a target within the gene.
Provide the following information:
Gene name:
Species:
Accession number:
Primer target:
Primer Output:
Explain why you selected this primer set.
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Objective: Get a sense of how genomics, the study of the genome in its entirety,needs to think about how to go about its research.
Geonomic DNA is broken up into fragments. The 5’ and 3’ ends of each fragment(a “read”) are sequenced. The sequenced reads are assembled together intocontiguous sequences (“contigs”) based on sequence similarity.
The idea is to sequence enough random fragments so that every nucleotide in thegenome is represented on some read. The number of such fragments needed iscalled the coverage, c.
The coverage c can be calculated by the formula RL/G, where R is the number ofreads sequenced, L is the average length of a read and G is the total length of thegenome. The units of length are bases (b) or base pairs (bp).
Consider a genome whose length is 1000 bp. “Shotgun” sequencing techniquesare applied to the genome, resulting in 20 reads, with an average length of 50 bp.A very important point is that, even though 20 x 50 = 1000, there is no guaranteethat ALL…
arrow_forward
Objective: Get a sense of how genomics, the study of the genome in its entirety,needs to think about how to go about its research.
Geonomic DNA is broken up into fragments. The 5’ and 3’ ends of each fragment(a “read”) are sequenced. The sequenced reads are assembled together intocontiguous sequences (“contigs”) based on sequence similarity.
The idea is to sequence enough random fragments so that every nucleotide in thegenome is represented on some read. The number of such fragments needed iscalled the coverage, c.
The coverage c can be calculated by the formula RL/G, where R is the number ofreads sequenced, L is the average length of a read and G is the total length of thegenome. The units of length are bases (b) or base pairs (bp).
Consider a genome whose length is 1000 bp. “Shotgun” sequencing techniquesare applied to the genome, resulting in 20 reads, with an average length of 50 bp.A very important point is that, even though 20 x 50 = 1000, there is no guaranteethat ALL…
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CA Live Remote
Consider the following chart: What type of mutation is this? *
DNA:
TAC GCA TGG AAT
MRNA: AUG CGU ACC UUA
Amino
acids:
Met-Arg-Thr-Leu
DNA:
TAC GTA TGG AAT
MRNA: AUG CAU ACC UUA
Amino
acids:
Met - His - Thr- Leu
substitution
deletion
insertion
frameshift mutation
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Instructions: Here is some information about the sequences:
All these sequences, “SEQUENCE_21” to “SEQUENCE_27” are in the same subfamily or “clade” of a large phylogenetic alignment of all Rab proteins in these three species (see “Figure 1.pdf”,which is the second image, for a full view of gene family in humans, plants and yeast, see the “D” branch towards the bottom of the tree in Figure 1). “SEQUENCE_28” is a different Rab protein (actually it is the Rab39 protein at the bottom of the tree).
“SEQUENCE_21” is from yeast.
“SEQUENCE_22” to “SEQUENCE_25” are from the plant, Arabidopsis.
“SEQUENCE_26” and “SEQUENCE_27” are from humans.
Question: Based on the information above, what can you speculate about the possible evolution of the genes that “SEQUENCE_21” to “SEQUENCE_27” represent?
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Please answer fast
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I only need help with question #8.
Use question #7 as context for question #8.
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Discuss about Genome 10K Project ?
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Urgent and thanks
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TALENs
What is it?
And how it works in genome editing?
Including additional figures pls
At least 1-2 page
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Question:-
compare these two techniques. Compare a nucleosome protection assay and a northern blotting is a text format and also in drawinv format.
for drawing use same sample for both techniques
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Help 1
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Q1: What common mechanism is employed by the guide RNA to find its target DNA sequence? Q2: How many strands of DNA must Cas9 cut to be effective? Q3: Does Cas9 also cause the deletion of DNA from the genome?
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Q6. What replaces the function of helicase in PCR?
Q7. Why are primers important in PCR?
Q8. What is the principal feature of Taq polymerase that enables of DNA amplification invitro?
Q9. What is the most important feature of the thermocycler that makes PCR possible?
Q10. Why is ligase not needed in PCR?
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汽
(0 hope this picture, https://www.phys.kSu.edu/gene/photos/sd.html. 2 will help you imagine the results for r
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typed answer and atremt all questions please
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In Figure 5-38, precisely which gene is eventually identified from the genome sequence?
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ME
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ucture.com/courses/47420/quizzes/225324/take
Question 3. Choose the best method (from lectures 19-21) for each of the following experiments.
You want to determine the transcriptomic response to heat shock in
[ Choose ]
a normal cell line.
You'want to measure the quantity of mRNA of your gene of interest
in sepal vs petal cells.
[ Choose ]
You want to identify the mutation that has occurred in your gene o
V [ Choose ]
interest after EMS mutagenesis.
CRISPR
Map based sequencing or whole genome shotgun sequencing
You want to know the DNA sequence of all of the genes in a
Recombinant DNA
genome.
Restriction enzyme digest
RT-PCR or qPCR
You want to make large quantities of DNA of your gene of interest
from a tiny amount of DNA.
Sanger sequencing
PCR
You want to determine the differences between the proteins made
Cloning
in the sepal vs petal cells.
Microarray or RNA-seq
Proteomics
Question 12
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- TOPIC: PCR and Gene Cloning Basics Question: What are 2 possible roles of CaCl2 in the transformation process?arrow_forwardHelp.arrow_forwardQuestion:- What is genetic engineering? What organisms can it be performed on? Please give an example of at least one successful genetic engineering project. Where was CRISPR/Cas9 initially found? What was its purpose in that organism?arrow_forward
- My question:arrow_forward8:25 Screenshot_2021120 What I Can Do Activity 6. What is your stand? Directions. Below are some of the arguments about the use of transgenie organism. In your own perspective, explain your answer in not more than 5 sentences. 1. Among the cited examples of GMO, which do you think is the most beneficial? 2. If you are a farmer would you take the chance of growing crops that are pest resistant? Why or why not? 3. Considering the knowledge gained genetic engineering, would you try to patronize GMO fruits and vegetables? Why or why not? 4. Is creating or altering genes of an organism a form of Blasphemy to the creator (God)? Why? 5. Is genetic engineering morally permissible or not?arrow_forwardQuestion:- 2. How could multi-genes families complicate things in terms of using CRISPR to knock out a target gene and achieve a target phenotype?arrow_forward
- Direction: On the worksheet, all the DNA sequences run from 3' to 5'. Supply the corresponding amino acid base on the DNA sequence provided per item. Determine the type of mutation and explain its effect on the expression of amino acids. 1. DNA Sequence: TAC TCC GGC TCT CCC AGT TGA ACT inim Mutated Sequence: TAC TCG GCT CTC CCA GTT GAA CT Original Amino acid: Mutated Amino Acid: What mutation have occurred in the sequence? How does it affect the expression of amino acids? 2. DNA Sequence: TAC TCC GGC TCT CCC AGT TGA ACT Mutated Sequence: TAC TCT GGC TCT CCA AGT TGA ACT ww mm Original Amino acid: Mutated Amino Acid: What mutation has occurred in the sequence? How does it affect the expression of amino acids?arrow_forwardUpdates Sickle-cell hemoglobin differs from regular hemoglobin in just one amino acid. Normal hemoglobin is created from the codon GAA, which codes for glutamic acid while sickle-cell hemoglobin has the codon GUA, which codes for valine. This is an example of what type of mutation? * Grades Members Conferences BQ Online Insertion ewsela Silent mutation ation O Deletion ogy Periods 1 and 2 periods ool MP1, Highschool ghschool MP3, pol MP4 Substitution mutation During translation, the growing peptide chain resides in the P site of rRNA with the next amino acid in the chain waiting in the A site. Erythromycin, a common days Wed Thu Fri antibiotic, prevents the TRNA at the A site from moving into the P site. How does INTL 1 A 9.0arrow_forward12e which genes that are normally found in a lambda genome would be deleted in your lambda vector? briefly explain why those lambda genes are normally delete it from your lambda phage being used as cloning vectors.arrow_forward
- Question:- Define, compare, and contrast the utility of microarray and RNAseq while analyzing gene expression levels.arrow_forwardNeed help, please.arrow_forwardPrimer Development Pick your favorite gene and develop primers for a target within the gene. Provide the following information: Gene name: Species: Accession number: Primer target: Primer Output: Explain why you selected this primer set.arrow_forward
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SEE MORE QUESTIONS
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